RLG00000015027

histone deacetylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0000538
Physical Location & Seq
Forward (+)
60789448 .. 60790041
594 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000015027

Sequence Viewer

Length: 594 bp
ATGGTTGATGTTGCTGATCTCATATCGAAGCCATTTCTTGGCTTCAATAATAATCCAGTGGATGCCAAGCCATTTGACGGTCATGATGCGTTTGCATTGGCCAAGGAAGGACTTCAGAAAATCATTGATCAGGGGTTAGAAGCTTTAGCTAATGACCAACTGCAAAGAGAGTTTCTCACTTATTCAGCCATACTTCTATCAGCTGATTCCTGCCCATCGGAATTGAAGGCTGACCTTTCTTCATTCAGAGGTAATCTCCCAGAGGAAACCTCTGCTTTTATTCAAGCTAGAAATGAGTTGAAGGTGGCCTCAGACCTAGCAGCTTCAATTACTGTGAAGAAGTTTGTCCTCCAGCAAGAGTCTTCCAAGTATTCCGATGCAAGAAAAGAAATTCTTGCCTCAGAGGAGAGAATTGCCAATCTTAAGGCTACTCTAGCAACAGAAGAGAGCAAGAAGGCAAAGTTCGATGAGATTTTGGGTTCGATCGAGACTCTAGTAACCTCTGCCAAAGATGGATTGGTCTCAGACTTGGCACAAGTCTCTAGCATGGAGGGAACAATCCAAGCTACTACCCAGTTAGTATCTCAGCGATAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
zf-UBP

Protein Analysis

198

Amino Acids

21.36

Weight (kDa)

4.72

Isoelectric Point (pI)

40.49

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000538)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g04050 FvH4_2g04050 FvH4_2g04050 FvH4_2g04050 FvH4_2g04050
rosa_chinensis RchiOBHm_Chr6g0253231 RchiOBHm_Chr6g0253251 RchiOBHm_Chr6g0253261 RchiOBHm_Chr6g0253271 RchiOBHm_Chr6g0253291 RchiOBHm_Chr6g0253321 RchiOBHm_Chr6g0253331 RchiOBHm_Chr6g0253341 RchiOBHm_Chr6g0253371 RchiOBHm_Chr6g0253401
rosa_laevigata RLG00000015022 RLG00000015023 RLG00000015024 RLG00000015027 RLG00000015028 RLG00000015030 RLG00000015031 RLG00000015034 RLG00000015035 RLG00000015038 RLG00000015041
rosa_multiflora Rmu_sc0001257.1_g000004 Rmu_sc0001257.1_g000008 Rmu_sc0001257.1_g000014 Rmu_sc0001257.1_g000016 Rmu_sc0001257.1_g000019 Rmu_sc0001257.1_g000026 Rmu_sc0002560.1_g000013 Rmu_sc0002560.1_g000020 Rmu_sc0002560.1_g000021 Rmu_sc0003855.1_g000005 Rmu_sc0003855.1_g000011 Rmu_sc0003898.1_g000003 Rmu_sc0003898.1_g000005 Rmu_sc0003898.1_g000016 Rmu_sc0003898.1_g000017 Rmu_sc0005439.1_g000007 Rmu_sc0005439.1_g000014 Rmu_sc0005439.1_g000021
rosa_roxburghii Rroxscaffold_7G00211930 Rroxscaffold_7G00211940 Rroxscaffold_7G00211960 Rroxscaffold_7G00211980 Rroxscaffold_7G00211990 Rroxscaffold_7G00212000 Rroxscaffold_7G00212050 Rroxscaffold_7G00212060 Rroxscaffold_7G00212070 Rroxscaffold_7G00212080 Rroxscaffold_7G00212160
rosa_rugosa Rorug05G0542900 Rorug05G0542900 Rorug05G0543000 Rorug05G0543100 Rorug05G0543100 Rorug05G0543200 Rorug05G0543300 Rorug05G0543400 Rorug05G0543400 Rorug05G0543500 Rorug05G0543600 Rorug05G0543700
rosa_samantha Rh6CG050000 Rh6DG045200 Rh6DG045500 Rh6DG045600 Rh6DG045700 Rh6DG045800 Rh6DG046200 Rh6DG046300 Rh6DG046400 Rh6DG046500 Rh6DG046700 Rh6DG046800
rosa_wichuraiana Rw0G000070 Rw6G005230 Rw6G005240 Rw6G005280 Rw6G005290

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 38
AcoI YGGCCR 1 cut(s) 99
AcsI RAATTY 1 cut(s) 390
AcuI CTGAAG 1 cut(s) 98
AfiI CCNNNNNNNGG 2 cut(s) 38, 77
AflII CTTAAG 1 cut(s) 422
AgsI TTSAA 5 cut(s) 46, 226, 284, 301, 327
AluBI AGCT 6 cut(s) 143, 149, 203, 287, 323, 566
AluI AGCT 6 cut(s) 143, 149, 203, 287, 323, 566
Alw26I GTCTC 3 cut(s) 482, 526, 544
AoxI GGCC 2 cut(s) 99, 306
ApeKI GCWGC 1 cut(s) 320
ApoI RAATTY 1 cut(s) 390
Asp700I GAANNNNTTC 1 cut(s) 111
BalI TGGCCA 1 cut(s) 101
BbsI GAAGAC 1 cut(s) 354
BbvI GCAGC 1 cut(s) 332
BccI CCATC 2 cut(s) 223, 506
BclI TGATCA 1 cut(s) 127
BcoDI GTCTC 3 cut(s) 482, 526, 544
BfaI CTAG 5 cut(s) 288, 317, 434, 494, 543
BfrI CTTAAG 1 cut(s) 422
BisI GCNGC 1 cut(s) 321
BlsI GCNGC 1 cut(s) 322
BmrI ACTGGG 1 cut(s) 568
BmsI GCATC 3 cut(s) 52, 76, 367
BmuI ACTGGG 1 cut(s) 568
BpiI GAAGAC 1 cut(s) 354
BplI GAGNNNNNCTC 6 cut(s) 159, 191, 240, 272, 254, 286
BpmI CTGGAG 1 cut(s) 335
BsaI GGTCTC 1 cut(s) 526
BsaJI CCNNGG 1 cut(s) 102
Bsc4I CCNNNNNNNGG 2 cut(s) 38, 77
Bse1I ACTGG 2 cut(s) 56, 574
BseDI CCNNGG 1 cut(s) 102
BseGI GGATG 1 cut(s) 67
BseLI CCNNNNNNNGG 2 cut(s) 38, 77
BseMII CTCAG 3 cut(s) 324, 414, 537
BseNI ACTGG 2 cut(s) 56, 574
BseRI GAGGAG 1 cut(s) 419
BseXI GCAGC 1 cut(s) 332
Bsh1285I CGRYCG 1 cut(s) 486
BshFI GGCC 2 cut(s) 101, 308
BsiEI CGRYCG 1 cut(s) 486
BslI CCNNNNNNNGG 2 cut(s) 38, 77
BsmAI GTCTC 3 cut(s) 482, 526, 544
BsnI GGCC 2 cut(s) 101, 308
Bso31I GGTCTC 1 cut(s) 526
Bsp143I GATC 3 cut(s) 16, 127, 483
BspANI GGCC 2 cut(s) 101, 308
BspCNI CTCAG 3 cut(s) 323, 413, 536
BspHI TCATGA 1 cut(s) 82
BspTI CTTAAG 1 cut(s) 422
BspTNI GGTCTC 1 cut(s) 526
BsrI ACTGG 2 cut(s) 56, 574
BssECI CCNNGG 1 cut(s) 102
BssMI GATC 3 cut(s) 16, 127, 483
BssT1I CCWWGG 1 cut(s) 102
Bst4CI ACNGT 2 cut(s) 80, 334
Bst6I CTCTTC 1 cut(s) 438
BstAFI CTTAAG 1 cut(s) 422
BstDEI CTNAG 4 cut(s) 310, 400, 523, 585
BstF5I GGATG 1 cut(s) 67
BstKTI GATC 3 cut(s) 19, 130, 486
BstMAI GTCTC 3 cut(s) 482, 526, 544
BstMBI GATC 3 cut(s) 16, 127, 483
BstMCI CGRYCG 1 cut(s) 486
BstMWI GCNNNNNNNGC 1 cut(s) 434
BstV1I GCAGC 1 cut(s) 332
BstV2I GAAGAC 1 cut(s) 354
BsuRI GGCC 2 cut(s) 101, 308
BtsCI GGATG 1 cut(s) 67
BtsIMutI CAGTG 1 cut(s) 63
CciI TCATGA 1 cut(s) 82
CviAII CATG 2 cut(s) 83, 547
DdeI CTNAG 4 cut(s) 310, 400, 523, 585
DpnI GATC 3 cut(s) 18, 129, 485
DpnII GATC 3 cut(s) 16, 127, 483
EaeI YGGCCR 1 cut(s) 99
Eam1104I CTCTTC 1 cut(s) 438
EarI CTCTTC 1 cut(s) 438
Eco130I CCWWGG 1 cut(s) 102
Eco31I GGTCTC 1 cut(s) 526
Eco57I CTGAAG 1 cut(s) 98
EcoT14I CCWWGG 1 cut(s) 102
ErhI CCWWGG 1 cut(s) 102
FaeI CATG 2 cut(s) 86, 550
FaiI YATR 4 cut(s) 23, 84, 191, 548
FalI AAGNNNNNCTT 2 cut(s) 378, 410
FatI CATG 2 cut(s) 82, 546
FbaI TGATCA 1 cut(s) 127
Fnu4HI GCNGC 1 cut(s) 321
FokI GGATG 1 cut(s) 74
Fsp4HI GCNGC 1 cut(s) 321
FspBI CTAG 5 cut(s) 288, 317, 434, 494, 543
GluI GCNGC 1 cut(s) 321
GsuI CTGGAG 1 cut(s) 335
HaeIII GGCC 2 cut(s) 101, 308
Hin1II CATG 2 cut(s) 86, 550
HindIII AAGCTT 1 cut(s) 141
HinfI GANTC 3 cut(s) 206, 359, 490
Hpy188I TCNGA 7 cut(s) 117, 220, 248, 313, 376, 403, 526
Hpy188III TCNNGA 2 cut(s) 83, 487
HpyAV CCTTC 4 cut(s) 101, 220, 295, 448
HpyCH4III ACNGT 2 cut(s) 80, 334
HpyCH4V TGCA 3 cut(s) 95, 163, 380
HpyF10VI GCNNNNNNNGC 1 cut(s) 434
HpyF3I CTNAG 4 cut(s) 310, 400, 523, 585
Hsp92II CATG 2 cut(s) 86, 550
Ksp22I TGATCA 1 cut(s) 127
Kzo9I GATC 3 cut(s) 16, 127, 483
LpnPI CCDG 6 cut(s) 69, 116, 223, 273, 365, 587
Lsp1109I GCAGC 1 cut(s) 332
LweI GCATC 3 cut(s) 52, 76, 367
MaeI CTAG 5 cut(s) 288, 317, 434, 494, 543
MaeIII GTNAC 1 cut(s) 496
MalI GATC 3 cut(s) 18, 129, 485
MboI GATC 3 cut(s) 16, 127, 483
MboII GAAGA 4 cut(s) 231, 349, 354, 455
MlsI TGGCCA 1 cut(s) 101
MluCI AATT 4 cut(s) 221, 327, 390, 411
MluNI TGGCCA 1 cut(s) 101
MlyI GAGTC 2 cut(s) 368, 484
MnlI CCTC 9 cut(s) 242, 256, 280, 319, 359, 397, 409, 511, 544
Mox20I TGGCCA 1 cut(s) 101
MroXI GAANNNNTTC 1 cut(s) 111
MscI TGGCCA 1 cut(s) 101
MseI TTAA 1 cut(s) 423
Msp20I TGGCCA 1 cut(s) 101
MspA1I CMGCKG 1 cut(s) 203
MspCI CTTAAG 1 cut(s) 422
MwoI GCNNNNNNNGC 1 cut(s) 434
NdeII GATC 3 cut(s) 16, 127, 483
NlaIII CATG 2 cut(s) 86, 550
PagI TCATGA 1 cut(s) 82
PdmI GAANNNNTTC 1 cut(s) 111
PfeI GAWTC 1 cut(s) 206
PflMI CCANNNNNTGG 1 cut(s) 38
PkrI GCNGC 1 cut(s) 322
Ple19I CGATCG 1 cut(s) 486
PleI GAGTC 2 cut(s) 367, 484
PpsI GAGTC 2 cut(s) 367, 484
PvuI CGATCG 1 cut(s) 486
PvuII CAGCTG 1 cut(s) 203
SaqAI TTAA 1 cut(s) 423
SatI GCNGC 1 cut(s) 321
Sau3AI GATC 3 cut(s) 16, 127, 483
SchI GAGTC 2 cut(s) 368, 484
SfaNI GCATC 3 cut(s) 52, 76, 367
SmlI CTYRAG 1 cut(s) 422
SmoI CTYRAG 1 cut(s) 422
Sse9I AATT 4 cut(s) 221, 327, 390, 411
SspMI CTAG 5 cut(s) 288, 317, 434, 494, 543
StyI CCWWGG 1 cut(s) 102
TaaI ACNGT 2 cut(s) 80, 334
TaqI TCGA 4 cut(s) 26, 465, 482, 486
TasI AATT 4 cut(s) 221, 327, 390, 411
TfiI GAWTC 1 cut(s) 206
Tru1I TTAA 1 cut(s) 423
Tru9I TTAA 1 cut(s) 423
TscAI CASTG 1 cut(s) 63
TseI GCWGC 1 cut(s) 320
TspDTI ATGAA 1 cut(s) 231
TspRI CASTG 1 cut(s) 63
Van91I CCANNNNNTGG 1 cut(s) 38
Vha464I CTTAAG 1 cut(s) 422
XapI RAATTY 1 cut(s) 390
XcmI CCANNNNNNNNNTGG 1 cut(s) 514
XmnI GAANNNNTTC 1 cut(s) 111
XspI CTAG 5 cut(s) 288, 317, 434, 494, 543
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.